DOKK / manpages / debian 12 / seqan-apps / tree_recon.1.en

NAME

tree_recon - Tree reconstruction

SYNOPSIS

tree_recon [OPTIONS] -m IN.DIST

DESCRIPTION

Reconstruct phylogenetic tree from Phylip matrix IN.DIST.

OPTIONS

-h, --help: Display the help message.
--version: Display version information.

Input / Output:

-m, --matrix INPUT_FILE: Name Phylip distance matrix file. Must contain at least three species. Valid filetype is: .dist.
-o, --out-file OUTPUT_FILE: Path to write output to. Valid filetypes are: .newick and .dot. Default: tree.dot.

Algorithm Options:

-b, --build STRING: Tree building method. nj: neighbour-joining, min: UPGMA single linkage, max: UPGMA complete linkage, avg: UPGMA average linkage, wavg: UPGMA weighted average linkage. Neighbour-joining creates an unrooted tree. We root that tree at the least joined pair. One of nj, min, max, avg, and wavg. Default: nj.

CONTACT AND REFERENCES

For questions or comments, contact:: Tobias Rausch <rausch@embl.de>
SeqAn Homepage:: http://www.seqan.de

tree_recon 1.4.8 [tarball]